Sequence
atgc intronic sequence ATGC exonic sequencegtagagtgataaagctgttttctctgtctttgaaccctaacatgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G37290.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G37290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g17540.1 (Oryza sativa), 3'ss of exon 7
----------------------------------------gtagagtgataaagctgttttctctgtct----ttgaaccctaaca-----tgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
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gtatgcttttattaaatgccttgtctcttgaaaaaaaatacttgattgataatttttctttgtattttcaagattgtatgctaactctaattccactttatttttctcgttttcgctcatcattttgaattttcagGGCTCTGGTGGGGGTCATTGATGAGTATTTTGATGGTTATTACACTGAGGAAATGATTGAATCTCAG
upper sequence: AT2G37290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G154883_T01 (Zea mays), 3'ss of exon 6
----------------------------gtagagtgataaagctgttttctctgtctttgaaccctaacatgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
| || | ||| || | | || || ||||| | ||||| | || | ||||| | || || ||| | |||||||||||||||||||| ||||| |||||||||||||| |||||||||
gtatgtcttcatgaaatggaccttgtatatggaagggaaaaaaatattcaatggccctt---ttttagtgcaaggctgtatggcttctccattttgacttgcttttgcatttcagGGCCTTAGTAGGGGTTATTGATGATTATTTTGATGGATACTACACTGAAGAAATGATTGAATCTCAG
upper sequence: AT2G37290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G095868_T03 (Zea mays), 3'ss of exon 6
-------------gtagagtgataaagctgttttctctgtctttgaaccctaacatgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
||| | || | | || | | || ||||| | |||| | || | ||||| |||| || ||| | |||||||||||||||||||| ||||| |||||||||||||| ||||| |||
gtatgtctttcttgtatatggaaggaaaaaagat-tcaatggccaatttttagtgcatgactgtatggcttctccattttcacttgcttttgaatttcagGGCTTTAGTAGGGGTTATTGATGATTATTTTGATGGATACTACACTGAAGAAATGATTGAATCACAG
upper sequence: AT2G37290.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv08s0040g03050.t01 (Vitis vinifera), 3'ss of exon 6
gtagagtgataaagctgttttctctgtctttgaaccctaacatgcattggt--atgagct-----gatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
|||| |||| || || || | | | |||| | ||| | | || |||| ||||| ||||| | | |||| | ||||||||||||| || || ||||||||||||| |||||||||||| | || ||||||||||||||||||
gtag-gtga--aaacttttgacatcatggtggaacacacgcataaaacaattaattagctttatggatttgtttgttttaaccaaat-tatcagGACTTTGGTGGGTATTCTTGATGATTATTTCGATGGCTACTATTCAGAGGAAATGATAGAATCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaccctaacatgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
atttttttgtgtaa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagagtgataaagctgttttctctgtctttgaaccctaacatgcattggtatgagctgatttttttgtgtaactgaaatgtctcagGACTTTGGTTGGGATAATTGATGATTATTTTGATGGCTACTATACTGAAGAAATGATAGAATCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA